Introduction

The GenomEast Platform is hosted at the IGBMC (CNRS / University of Strasbourg / INSERM). With an experience of over 15 years, we offer a wide range of services to survey genomes, their expression and their regulation, from quality check of starting material up to data analysis. These services are intended for the entire scientific community, national and international, public and private.

Equipments

Bioinformatics

Personalized support for data analysis (ChIP-seq, RNA-seq, small RNA-seq, DNA-seq, ATAC-seq, MEDIP-seq), from primary analysis to a large panel of in-depth secondary analysis through scientific collaborations. In particular, we have established RNA-seq, ChIP-seq and targeted DNA-seq pipelines using publicly available tools or in-house software.

Regular organization of training sessions on Next Generation Sequencing data analysis.

Main achievements

Over the past three years, the platform worked each year on about 300 projects (corresponding each year to more than 3,000 sequenced libraries, more than 1,500 RNA-seq and more than 500 ChIP-seq libraries prepared), and the bioinformaticians from the platform analysed each year about 150 projects.

Members of the platform are co-authors of 51 publications over the last three years (mainly on ChIP-seq, RNA-seq, DNA-seq projects or on integrative analysis of data from several applications). Five of them are listed below:

Ibrahim A, et al. MeCP2 is a microsatellite binding protein that protects CA repeats from nucleosome invasion. Science (2021) 372(6549):eabd5581.

Abu El Maaty MA, et al. Single-cell analyses unravel cell type-specific responses to a vitamin D analog in prostatic precancerous lesions. Science Advances (2021) 7(31):eabg5982.

Zhang J, et al. Sequential actions of EOMES and T-BET promote stepwise maturation of natural killer cells. Nature Communications (2021)12(1):5446.

Vernet N, et al. Meiosis occurs normally in the fetal ovary of mice lacking all retinoic acid receptors. Science Advances (2020) 6(21):eaaz1139.

Florian RT, et al. Unstable TTTTA/TTTCA expansions in MARCH6 are associated with Familial Adult Myoclonic Epilepsy type 3. Nature Communications (2019) 10(1):4919.

Last update Nov 2021